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1JF5
Asym. Unit
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Asym.Unit (195 KB)
Biol.Unit 1 (191 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THERMOACTINOMYCES VULGARIS R-47 ALPHA-AMYLASE 2 MUTANT F286A
Authors
:
A. Ohtaki, S. Kondo, Y. Shimura, T. Tonozuka, Y. Sakano, S. Kamitori
Date
:
20 Jun 01 (Deposition) - 22 May 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Beta/Alpha Barrel, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Ohtaki, S. Kondo, Y. Shimura, T. Tonozuka, Y. Sakano, S. Kamitori
Role Of Phe286 In The Recognition Mechanism Of Cyclomaltooligosaccharides (Cyclodextrins) By Thermoactinomyces Vulgaris R-47 Alpha-Amylase 2 (Tvaii). X-Ray Structures Of The Mutant Tvaiis, F286A And F286Y, And Kinetic Analyses Of The Phe286-Replaced Mutant Tvaiis
Carbohydr. Res. V. 334 309 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
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No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:143 , ASP A:145 , ASN A:148 , ASP A:149 , GLY A:169 , ASP A:171
BINDING SITE FOR RESIDUE CA A 601
2
AC2
SOFTWARE
ASN B:143 , ASP B:145 , ASN B:148 , ASP B:149 , GLY B:169 , ASP B:171
BINDING SITE FOR RESIDUE CA B 602
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1jf5a2 (A:503-585)
1b: SCOP_d1jf5b2 (B:503-585)
2a: SCOP_d1jf5a1 (A:1-120)
2b: SCOP_d1jf5b1 (B:1-120)
3a: SCOP_d1jf5a3 (A:121-502)
3b: SCOP_d1jf5b3 (B:121-502)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
alpha-Amylases, C-terminal beta-sheet domain
(272)
Protein domain
:
Maltogenic amylase
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
1a
d1jf5a2
A:503-585
1b
d1jf5b2
B:503-585
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
E set domains
(509)
Family
:
E-set domains of sugar-utilizing enzymes
(147)
Protein domain
:
Maltogenic amylase, N-terminal domain N
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
2a
d1jf5a1
A:1-120
2b
d1jf5b1
B:1-120
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Amylase, catalytic domain
(385)
Protein domain
:
Maltogenic amylase, central domain
(22)
Thermoactinomyces vulgaris, TVAII [TaxId: 2026]
(11)
3a
d1jf5a3
A:121-502
3b
d1jf5b3
B:121-502
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1jf5A02 (A:122-242,A:298-502)
1b: CATH_1jf5B02 (B:122-242,B:298-502)
2a: CATH_1jf5A04 (A:503-585)
2b: CATH_1jf5B04 (B:503-585)
3a: CATH_1jf5A01 (A:1-121)
3b: CATH_1jf5B01 (B:1-121)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
1a
1jf5A02
A:122-242,A:298-502
1b
1jf5B02
B:122-242,B:298-502
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
2a
1jf5A04
A:503-585
2b
1jf5B04
B:503-585
Homologous Superfamily
:
Immunoglobulins
(2282)
Thermoactinomyces vulgaris. Organism_taxid: 2026. Strain: r-47.
(23)
3a
1jf5A01
A:1-121
3b
1jf5B01
B:1-121
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_Alpha_amylase_C_1jf5B01 (B:508-583)
1b: PFAM_Alpha_amylase_C_1jf5B02 (B:508-583)
2a: PFAM_Alpha_amylase_1jf5B03 (B:170-466)
2b: PFAM_Alpha_amylase_1jf5B04 (B:170-466)
3a: PFAM_Alpha_amylase_N_1jf5B05 (B:1-117)
3b: PFAM_Alpha_amylase_N_1jf5B06 (B:1-117)
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Clans
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Clan
:
GHD
(106)
Family
:
Alpha-amylase_C
(82)
Thermoactinomyces vulgaris
(11)
1a
Alpha-amylase_C-1jf5B01
B:508-583
1b
Alpha-amylase_C-1jf5B02
B:508-583
Clan
:
Glyco_hydro_tim
(488)
Family
:
Alpha-amylase
(138)
Thermoactinomyces vulgaris
(15)
2a
Alpha-amylase-1jf5B03
B:170-466
2b
Alpha-amylase-1jf5B04
B:170-466
Clan
:
no clan defined [family: Alpha-amylase_N]
(16)
Family
:
Alpha-amylase_N
(16)
Thermoactinomyces vulgaris
(15)
3a
Alpha-amylase_N-1jf5B05
B:1-117
3b
Alpha-amylase_N-1jf5B06
B:1-117
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Asym.Unit (195 KB)
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Header - Biol.Unit 1
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